diff --git a/idea/idea-gradle/src/org/jetbrains/kotlin/idea/scripting/gradle/roots/GradleBuildRootsManager.kt b/idea/idea-gradle/src/org/jetbrains/kotlin/idea/scripting/gradle/roots/GradleBuildRootsManager.kt
index fc09f4990d0..18f1fae9f9b 100644
--- a/idea/idea-gradle/src/org/jetbrains/kotlin/idea/scripting/gradle/roots/GradleBuildRootsManager.kt
+++ b/idea/idea-gradle/src/org/jetbrains/kotlin/idea/scripting/gradle/roots/GradleBuildRootsManager.kt
@@ -202,9 +202,10 @@ class GradleBuildRootsManager(val project: Project) : ScriptingSupport.Provider(
     fun scheduleLastModifiedFilesSave() {
         if (lastModifiedFilesSaveScheduled.compareAndSet(false, true)) {
             BackgroundTaskUtil.executeOnPooledThread(project) {
-                lastModifiedFilesSaveScheduled.set(false)
-                roots.list.forEach {
-                    it.saveLastModifiedFiles()
+                if (lastModifiedFilesSaveScheduled.compareAndSet(true, false)) {
+                    roots.list.forEach {
+                        it.saveLastModifiedFiles()
+                    }
                 }
             }
         }